SequenceAlignment.java 文件源码

@Min(0)
@Max(1)
public double getFractionIdenticalOfAligned() {
    int nId = 0;
    int nNotIndel = 0;
    for (int i = 1; i <= m_sequencePair.getLength(); i++) {
        String a = m_sequencePair.getCompoundInTargetAt(i).getShortName();
        String b = m_sequencePair.getCompoundInQueryAt(i).getShortName();
        if (!a.equals("-") && !b.equals("-")) {
            nNotIndel++;
            if (a.equals(b)) {
                nId++;
            }
        }
    }
    return (double)nId / nNotIndel;
}